Erythroid clean

Parameter settings

Import Seurat object

Subset by sample group

Remove cells by cluster expressing marker genes

B-cell cluster

CpG: Cluster 17
NaCl: Cluster 17

T-Cell cluster

CpG: None
NaCl: Cluster 18

FACS sort overlap

Sort out cells which overlap FACS sort in low frequncy (N<=2)

clov: cluster overlap
clpu: cluster pure
clmi: cluster mixed

Find DEG in cluster with mixed Myeloid / Progenitor population

Cpg Myeloid cells mixed in Progenitor dominant cluster

Cpg Progenitor cells mixed in Myeloid dominant cluster

Keep all. It looks like a mixture of myeloid and MEP progenitors

NaCl Myeloid cells mixed in Progenitor dominant cluster

Only keep cluster 14 because it looks like a true myeloid progenitor cluster

Recompute dimensional reduction

Save output

TEST

Session info